1JAJ
Solution Structure of DNA Polymerase X from the African Swine Fever Virus
SOLUTION NMR
NMR Experiment | ||||||||
---|---|---|---|---|---|---|---|---|
Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
1 | 3D_13C-separated_NOESY | 1.0 mM DNA Polymerase X U-15N,13C; 500 mM NaCl; 20 mM PIPES (pH 6.5); 10 mM DTT; 0.5 mM AEBSF; 0.02% sodium azide | 100% D2O | 500 mM | 6.5 | ambient | 298 | |
2 | 3D_15N-separated_NOESY | 1.0 mM DNA Polymerase X U-15N; 500 mM NaCl; 20 mM PIPES (pH 6.5); 10 mM DTT; 0.5 mM AEBSF; 0.02% sodium azide | 90% H2O/10% D2O | 500 mM | 6.5 | ambient | 298 | |
3 | HNHA | 1.0 mM DNA Polymerase X U-15N; 500 mM NaCl; 20 mM PIPES (pH 6.5); 10 mM DTT; 0.5 mM AEBSF; 0.02% sodium azide | 90% H2O/10% D2O | 500 mM | 6.5 | ambient | 298 | |
4 | 2D NOESY | 1.0 mM DNA Polymerase X; 500 mM NaCl; 20 mM PIPES (pH 6.5); 10 mM DTT; 0.5 mM AEBSF; 0.02% sodium azide | 100% D2O | 500 mM | 6.5 | ambient | 298 |
NMR Spectrometer Information | |||
---|---|---|---|
Spectrometer | Manufacturer | Model | Field Strength |
1 | Varian | INOVA | 500 |
2 | Varian | INOVA | 600 |
NMR Refinement | ||
---|---|---|
Method | Details | Software |
torsion angle dynamics energy minimization | 200 random strucutres were calculated within Dyana. The 50 with the lowest target function were refined in xplor with energy minimization and the 25 with the lowest energy in xplor were selected for deposition. | VNMR |
NMR Ensemble Information | |
---|---|
Conformer Selection Criteria | structures with the lowest energy |
Conformers Calculated Total Number | 200 |
Conformers Submitted Total Number | 25 |
Representative Model | 1 (closest to the average) |
Additional NMR Experimental Information | |
---|---|
Details | Talos was used in conjunction with backbone resonance assignments to generate angle constraints. |
Computation: NMR Software | ||||
---|---|---|---|---|
# | Classification | Version | Software Name | Author |
1 | collection | VNMR | 6.1B | Varian, Inc. |
2 | processing | NMRPipe | 1.8 | Delaglio |
3 | data analysis | XEASY | 1.13 | Bartles |
4 | structure solution | DYANA | 1.5 | Guentert |
5 | refinement | X-PLOR | 3.851 | Brunger |